Study of HIV-2 primer-template initiation complex using antisense oligonucleotides

European Journal of Biochemistry

Volumn 267, Issue 9, 2000, Pages 2803-2811

  Boulmé, Florence ^a,b   Freund, Frédéric ^a   Gryaznov, Sergei ^c   Nielsen, Peter E ^d   Tarrago Litvak, Laura ^a   Litvak, Simon ^a  

^a University Victor Segalen   (France)

^b UNIVERSITY OF VIENNA   (Austria)

^c Ceron Corporation   (United States)

^d UNIVERSITY OF COPENHAGEN   (Denmark)

Author keywords

Antisense oligonucleotides; HIV 1 and 2; Interactions retroviral RNA primer tRNA(Lys3)

Indexed keywords

ANTISENSE OLIGONUCLEOTIDE; LYSINE TRANSFER RNA; PRIMER RNA; RNA DIRECTED DNA POLYMERASE; VIRUS RNA;

ANTICODON; ARTICLE; DNA SYNTHESIS; DNA TEMPLATE; HUMAN IMMUNODEFICIENCY VIRUS 2; NONHUMAN; PRIORITY JOURNAL; REVERSE TRANSCRIPTION; TRANSCRIPTION INITIATION;

BASE SEQUENCE; HIV-1; HIV-2; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; OLIGONUCLEOTIDES, ANTISENSE; RNA, VIRAL; TEMPLATES, GENETIC;

HUMAN IMMUNODEFICIENCY VIRUS; HUMAN IMMUNODEFICIENCY VIRUS 1; HUMAN IMMUNODEFICIENCY VIRUS 2; RNA VIRUSES;

EID: 0034075958     PISSN: 00142956     EISSN: None     Source Type: Journal    
DOI: 10.1046/j.1432-1327.2000.01310.x     Document Type: Article

References (39)

1. 1. Arts, E.J. & Le Grice, S.F.J. (1998) Interaction of retroviral reverse transcriptase with template-primer duplexes during replication. Prog. Nucleic Acid Res. Mol. Biol. 58, 335-394.
2. 2. Cobrinik, D., Aiyar, A., Ge, Z., Katzman, M., Huang, H. & Leis, J. (1991) Overlapping retrovirus U5 sequence elements are required for efficient integration and initiation of reverse transcription. J. Virol. 65, 3864-3872.
3. Trp primer is required for efficient initiation of reverse transcription. J. Virol. 66, 2464-2472.
4. Lys3 modulate primer/template loop-loop interaction in the initiation complex of HIV-1 reverse transcription. J. Biol. Chem. 268, 25269-25272.
5. Lys3 (template/primer). J. Mol. Biol. 247, 236-250.
6. Lys3. EMBO J. 15, 917-924.
7. Lys3. Nucleic Acids Res. 24, 509-514.
8. Lys3 anticodon on the initiation of HIV-1 reverse transcription. J. Virol. 70, 4700-4706.
9. 9. Wakefield, J.K., Rhim, H. & Morrow, C.D. (1994) Minimal sequence requirements of a functional HIV-1 primer binding site. J. Virol. 68, 1605-1614.
10. 10. Liang, C., Li, X., Rong, L., Inouye, P., Quan, Y., Kleiman, L. & Wainberg, M.A. (1997) The importance of the A-rich loop in HIV-1 reverse transcription and infectivity. J. Virol. 71, 5750-5757.
11. 11. Hizi, A., Tal, R. & Hughes, S.H. (1991) Mutational analysis of the DNA polymerase and ribonuclease H activities of HIV-2 reverse transcriptase expressed in Escherichia coli. Virology 180, 339-346.
12. 12. Hizi, A., Tal, R., Shaharabany, M. & Loya, S. (1991) Catalytic properties of the reverse transcriptases of human immunodeficiency viruses type-1 and type-2. J. Biol. Chem. 266, 6230-6239.
13. 13. Shaharabany, M. & Hizi, A. (1991) The DNA-dependent and RNA-dependent DNA polymerase activities of the reverse transcriptases of human immunodeficiency viruses type-1 and 2. AIDS Res. Hum. Retro. 7, 883-888.
14. 14. Fan, N., Rank, K.B., Poppe, S.M., Tarpley, W.G. & Sharma, S.K. (1996) Characterization of the p68/p58 heterodimer of HIV-2 reverse transcriptase. Biochemistry 35, 1911-1917.
15. 15. Berkhout, B. & Schoneveld, I. (1993) Secondary structure of the HIV-2 leader RNA comprising the tRNA-primer binding site. Nucleic Acids Res. 21, 1171-1178.
16. 16. Guyader, M., Emerman, M., Sonigo, P., Clavel, F., Montagnier, L. & Alizon, M. (1987) Genome organization and transactivation of the human immunodeficiency virus type-2. Nature 326, 662-669.
17. 17. Baudin, F., Marquet, R., Isel, C., Darlix, J.L., Ehresmann, B. & Ehresmann, C. (1993) Functional sites in the 5′ region of HIV-1 RNA form defined structural domains. J Mol. Biol. 229, 382-397.
18. Lys3 on HIV-1 and HIV-2 RNAs by both type-1 and type-2 reverse transcriptases. FEBS Lett. 430, 165-170.
19. Lys3. Eur J. Biochem. 184, 367-374.
20. 20. Müller, B., Restle, T., Kuhnel, H. & Goody, R.S. (1991) Expression of the heterodimeric form of HIV-2 reverse transcriptase in Escherichia coli and characterization of the enzyme. J. Biol. Chem. 266, 14709-14713.
21. 21. Alizon, M., Wain-Hobson, S., Montagnier, L. & Sonigo, P. (1986) Genetic variability of the AIDS virus: nucleotide sequence analysis of two isolates from African patients. Cell 46, 63-74.
22. 22. Gryaznov, S. & Chen, J.K. (1994) Oligodeoxyribonucleotide N3′-P5′ phosphoramidates: synthesis and hybridization properties. J. Am. Chem. Soc. 116, 3143-3144.
23. 23. Nielsen, P.E., Egholm, M., Berg, R.H. & Buchardt, O. (1991) Sequence selective recognition of DNA by strand displacement with a thymine-substituted polyamide. Science 254, 1497-1500.
24. 24. Bordier, B., Hélène, C., Barr, P.J., Litvak, S. & Sarih-Cotlin, L. (1992) In vitro effect of antisense oligonucleotides on HIV-1 reverse transcription. Nucleic Acids Res. 20, 5999-6006.
25. 25. Almarsson, O. & Bruice, T.C. (1993) Peptide nucleic acid (PNA) conformation and polymorphism in PNA-DNA and PNA-RNA hybrids. Proc. Natl Acad. Sci. USA 90, 9542-9546.
26. 26. Knudsen, H. & Nielsen, P.E. (1997) Applications of peptide nucleic acid in cancer therapy. Anticancer Drugs 8, 113-118.
27. 27. Corey, D.R. (1997) Peptide nucleic acids: expanding the scope of nucleic acid recognition. Trends Biotech. 15, 224-229.
28. 28. Boulmé, F., Freund, F., Moreau, S., Nielsen, P.E., Gryaznov, S., Toulmé, J.J. & Litvak, S. (1998) Modified (PNA, 2′-O-methyl and phosphoramidate) anti-TAR antisense oligonucleotides as strong and specific inhibitors of in vitro HIV-1 reverse transcription. Nucleic Acids Res. 26, 5492-5500.
29. 29. Ding, D., Gryaznov, S.M., Lloyd, D.H., Chetrasekaran, S., Yao, S., Ratmeyer, L., Pan, Y. & Wilson, W.D. (1996) An oligodeoxyribonucleotide N3′-P5′ phosphoramidate duplex forms an A-type helix in solution. Nucleic Acids Res. 24, 354-360.
30. 30. Gryaznov, S., Skorski, T., Cucco, C., Nieborowska-Skorska, M., Chiu, C.Y., Lloyd, D., Chen, J.K., Koziolkiewicz, M. & Calabretta, B. (1996) Oligonucleotide N3′-P5′ phosphoramidates as antisense agents. Nucleic Acids Res. 24, 1508-1514.
31. 31. Rigl, C.T., Lloyd, D.H., Tsou, D.S., Gryaznov, S.M. & Wilson, W.D. (1997) Structural RNA mimetics: N3′-P5′ phosphoramidate DNA analogs of HIV-1 RRE and TAR RNA form A-type helices that bind specifically to Rev and Tat-related peptides. Biochemistry 36, 650-659.
32. 32. Heidenreich, O., Gryaznov, S. & Nerenberg, M. (1997) RNase H-independent antisense activity of oligonucleotide N3′-P5′ phosphoramidates. Nucleic Acids Res. 25, 776-780.
33. Trp as primer for RNA-directed DNA polymerase: structural determinants of function. J. Biol. Chem. 254, 1866-1874.
34. 34. Cobrinik, D., Soskey, L. & Leis, J. (1988) A retroviral RNA secondary structure required for efficient initiation of reverse transcription. J. Virol. 62, 3622-3630.
35. 35. Aiyar, A., Ge, Z. & Leis, J. (1994) A specific orientation of RNA secondary structure is required for initiation of reverse transcription. J. Virol 68, 611-618.
36. LA1 RNA dimerization process in vitro. Biochemistry 35, 5075-5082.
37. 37. Paillart, J.C., Skripkin, E., Ehresmann, B., Ehresmann, C. & Marquet, R. (1996) A loop-loop 'kissing' complex is the essential part of the dimer linkage of genomic HIV-1 RNA. Proc. Natl Acad. Sci. USA 93, 5572-5577.
38. 38. Berkhout, B. (1997) The primer binding site on the RNA genome of human and simian immunodeficiency viruses is flanked by an upstream hairpin structure. Nucleic Acids Res. 25, 4013-4017.
39. 39. Matzura, O. & Wennborg, A. (1996) RNA draw: an integrated program for RNA secondary structure calculation and analysis under 32-bit Microsoft Windows. Computer Appl. Biosci. 12, 247-249.